Hello fellow achievement enthusiast! This guide will help put you on the path to greater completion! Each achievement is broken down into Campaign, Multiplayer, and Skirmish sections and describes the difficulty in attaining each achievement so you can prioritize what you want to go after. There are potential spoilers ahead!

There are some achievements that are possible in multiple modes - these achievements are listed in each relevant section, though I've noted where you may want to use one game mode over another.

I'm having an issue where many of the game's achievements are not unlocking for me. None of the ranked multiplayer achievements work (teleport 5 structures and use the unit teleporter 3 times, build 3 of each sentinel, repair 1000 damage, have 20 units in walls, etc). Skirmish achievements were also not unlocking, such as beat each faction, play total annihilation, etc. Uninstalling and resinstalling the game seems to have at least temporarily solved the skirmish issues but not the ranked multiplayer issues.

Build an Epic unit
You'll likely get this during the course of the Beta campaign. Alternatively, you can play a skirmish against an idle AI and not have to worry about anything.

Feed a Mother Goo to a Proto-Purger (in any aspect of the game)
In the final mission of the Goo campaign, start building your Epic. Then send a Mother into the Epic. Alternatively, you can play a skirmish against an idle AI and not have to worry about anything.

Build the Epic unit for each faction.
You'll likely get this during the course of playing through the campaign. Alternatively, you can play a skirmish against an idle AI and not have to worry about anything.

Rebuid your HQ (in any aspect of the game)
Technically possible in the Beta or Human campaign, but much easier in a skirmish where you have greater control of the AI. Move your forces away from your base, then after they've destroyed the HQ, push them back. Click on the HQ, then select Rebuild.

Complete the Mago's Pass mission without losing a single civilian
First, play this on easy. Save often and to new save slots each time. You may find you'll need to revert back a few saves if your strategy isn't working or the game decides to cheat. On the very last wave, I was watching the final civilians walk into the safe point when I kid you not, a mother appeared on top of them. So save, and save often!

Your goal in the first three waves should be to build as many refineries as possible. If you run them around to each civilian spawn area and clear the enemies out before the next wave starts, your starting units should be sufficient. (Remember to shoot rocks during downtime to clear paths.) Towards the middle of the third wave, switch to producing large factories with the tank attachment.

Now spam Gladius tanks non-stop. Gladius tanks can move and shoot, and on easy they can one or two shot most units. Start spreading them out around the map, and take control of every catalyst field, leaving a few units at each field. By wave 5 you should easily have total control of the map, and you'll only have to deal with the occasionally spawning mother.

Complete the Beta campaign on any difficulty
Complete all 5 missions of the Beta campaign. While you technically can get this and the other faction achievements on hard, the campaign is a tutorial, and it'll likely be better for you to play through on an easier difficulty first to learn what to do. See other guides for details on completing the campaign.

Complete the Human campaign on any difficulty
Complete all 5 missions of the Human campaign.

Complete the Goo campaign on any difficulty
Complete all 5 missions of the Goo campaign.
(Yes, that final part of the last mission is annoying, but it can be done. After you destroy the enemy bases, let your Epics be destroyed, and keep spamming cheap units over the enemy spawn points.)

Complete all missions of the campign on any difficulty.
You'll get this upon completion of the Goo campaign. Dr. Who would be proud!

Win all missions and complete all bonus objectives in the Beta campaign on any difficulty
If you're trying for 100% completion, don't worry about completing the bonus objectives during your easy/normal playthrough. If you won't be trying on hard, you may want to focus on the bonus objectives your first playthrough.

Win all missions and complete all bonus objectives in the Human campaign on any difficulty.
Same as with the Beta version.

Win all missions and complete all bonus objectives in the Goo campaign on any difficulty
Same as with the Beta version.

Win all missions and complete all bonus objectives in the campaign on any difficulty.
Self explanitory. There are other guides that can give you details for each mission.

Complete all missions of the campaign on Hard difficulty
This will take a while. Generally, completing secondary objectives will make your life easier, so you should make sure you complete all of them during your hard playthrough for the Completionist achievement.

Win all missions and complete all bonus objectives in the campaign on hard difficulty
Make sure you get each bonus objective during your hard playthrough. Save often in multiple slots, so you can revert if something goes wrong.

Build an Epic Unit
This is doable in multiplayer, but is much easier to accomplish in the campaign or skirmish. Most multiplayer games are over or at least the victor is determined by the time you can get an Epic out.

Build the Epic unit for each faction
Again, doable in multiplayer, but easier in campaign or skirmish modes.

Feed a Mother Goo to a Proto-Purger (in any aspect of the game)
As Goo, start building your Epic. Then send a Mother into the Epic. Alternatively, you can play a skirmish against an idle AI and not have to worry about anything.

Win a one-on-one multiplayer match
You need only win a single match. If you absolutely cannot win a single match, get a friend to join you and have him let you win.

Win a 2v2 multiplayer match
You need only win a single match. Arguably easier, since a good player could help carry you.

During a multiplayer match, build the maximum number of possible units
Pretty easy, but you'll need the game to stretch on for this one. Don't be agressive, and only attack your enemy when he can't offer much resistance. If you've won a game, consider not finishing your opponent off until you hit the cap.

As Human or Beta, complete a multiplayer or skirmish match without ever hitting the resource cap
Most easily done in short games. Note that you don't need to win the game, just complete it. You can manage your build production well, or you can build your refinery, sell it, and wait for your death.

Win a multiplayer match after destroying an enemy Epic unit
You can destroy an Epic that's still building and get credit. Goo epics are usually the least defended Epic, but you may also come across an Epic as you invade the enemy base. Alternatively, camp in your base and let them bring the epic to you, then swarm it.

Win a skirmish or multiplayer match in Total Annihilation mode
Create a custom game and select Total Annihilation. Alternatively, you can play a skirmish against an idle AI and not have to worry about anything.

Rebuild your HQ (in any aspect of the game)
In multiplayer, this is best done in a 2v2 game where your teammate can help rescue you. Still, this is considerably easier in a skirmish game where you can better control the AI.

Win a four player free-for-all
All four players must be human - AI players won't work. This will take a bit of luck, as well as some skill. Don't be the one to sacrifice your forces to take out another player - let some other poor fool do it, then mop up the remnants. Alternatively, get three friends and trade wins.

Win a LAN match (against an actual person or persons)
Barring some trickery to fake a local network, you'll need two copies of the game. Use a virtual machine and run the second copy on there, or use another computer. You clearly don't have any friends and are incapible of making any in real life, because you wouldn't be reading this right now if you did.

Have at least 20 units mounted on wall pillars at the same time during a single ranked multiplayer match
As Beta, build walls and fill them with troops. This can be a valid strategy, but be prepared to lose this match.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Consume 100 enemy units or structures with formless Goo in a ranked multiplayer match
To get that many enemies, you're going to need the game to drag on a while. Place your goo in ambush points and hit the enemy as they go by. Harvesters count towards this number, so attacking extractors is a good tactic.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Heal 1000 or more damage using the Repair Pad structure during a single ranked multiplayer match
Attack, fall back, repair. Might be easiest in a 2v2, so your teammate can keep the pressure on while you're managing repairs.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Use the Teleporter structure at least 3 times and teleport at least 5 structures during a single ranked multiplayer match
Pretty easy, but you'll have to go out of your way to get it. You can just teleport some silos back and forth if there's no reason for you to teleport buildings.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Destroy 5 Extractors or Mother Goos with a Mother Goo in a single ranked multiplayer match
Extractors in the middle of the map can often be left undefended. Sending multiple Mothers together can make quick work of an extractor before your opponent can send in reinforcements. Simply retreat after you kill one, and let him rebuild. In construction buildings count, so make use of this if possible.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Have at least 3 of every Sentinel type in your base at once during a single ranked multiplayer match
Another easy one, but again you'll have to go out of your way to build all 12.
THIS ACHIEVEMENT IS CURRENTLY BUGGED, AND MAY NOT UNLOCK.

Destroy each faction's Epic unit during a multiplayer or skirmish match
You need only to destroy each faction's Epic once across multiple games. This does NOT need to be done in one match. Epics that are still being constructed count.

Win 100 multiplayer matches of any size or mode
Through normal play, with matches taking an average of 20 minutes, you're looking at over 30 hours, assuming you win every match (not happening). If you want to grind this one out instead of getting it through normal play, you have two options. The first is to go for quick games - make an early rush, and if it fails give up and play a new game. Or you can trade wins with a friend.

Build an Epic unit
Create a game with a an AI whose type is "Idle". This will allow you to build your Epic without having to manage defense. You're likely to get this during a campaign playthrough, however.

Win a skirmish match against an AI
Create a game with a an AI whose type is "Idle". Easy as pie.

Win a skirmish match against 3 AI opponents on hard difficulty
You used to be able to idle this one, but they patched it. Set the game to free for all, and don't over-extend yourself. Humans work well for this, since you can build defenses that don't add to your unit count.

Win a skirmish match against the AI with each of the factions
If only there was some setting that would make the AI just stand there, just idling without a care in the world...

Feed a Mother Goo to a Proto-Purger (in any aspect of the game)
Create a game with a an AI whose type is "Idle". This will allow you to build your Epic without having to manage defense.

Build the Epic unit for each faction
Again, Idle AI make this easy. You're likely to get this during a campaign playthrough, however.

As Human or Beta, complete a multiplayer or skirmish match without ever hitting the resource cap
With Idle AI, build your refinery, then start building a factory. Sell the refinery, and use the few units you get to kill the AI.

Win a skirmish or multiplayer match in Total Annihilation mode
Say it with me: Idle!

Rebuild your HQ (in any aspect of the game)
Don't use Idle AI for this one! Build up a sizable force, then pull it away from your base. Let the AI destroy your HQ, then move in with your forces to push them out. Click your HQ and then select Rebuild.

Destroy each faction's Epic unit during a multiplayer or skirmish match
You need only to destroy each faction's Epic once across multiple games. This does NOT need to be done in one match. Epics that are still being constructed count.

Win 100 skirmish matches
This can be a bit time consuming. Just create 1v1 matches against an Idle AI and go to town.

If you really want to cheese it hard, I made a map that wins the game for you with no action in under a minute. Grab it here: http://cs2bus.com/sharedfiles/filedetails/?id=391697801