I got Farkas as my follower and for some god forsaken accident, He turn on me when I was doing something illegal and when I withdraw my weapon so he stop attacking but keep stalking me and no matter what command I issued, he won't leave. I can't even quick travel because the game said "Can't quick travel when guard are pursuing you", and he is not even a guard. Is there away to get rid of him without killing him cause I still need him for some free armor training...

The USEP entry on Farkas says that he is tagged as a guard, so he will turn on you if you have a high enough bounty (and will presumably give you that bounty if he's the only one who sees you committing the crime.

Can't help you with the second bug though.

I think he's a guard becaude he once took an arrow in the knee while adventuring

Its a known bug. Try reloading your game.

If that does not work reload an earlier save. Hope that helps.

Maybe pay your bounty?

Reload is the most obvious cure.

Just kill him and find another.

The problem with paying my bounty is that I just killed several if not dozens of guards in Markath because of this quest and I have no choice but to fight them so pay my bounty is not possible, I'll be broke after or might not even have enough to pay. Can't reload because I already save once more when he was already stalking me over the same file and I only keep one save file per character on my game because I'm on ps3 and by keeping the fewest save file possible mean less freezing. I also don't want to kill him because he gave companion quest and I would like to keep all quest character alive if possible. I just checked Wikia Skyrim and it said that I might be able to fix this by finishing a conversation with him and once he withdraw his blade I might be able to quick travel but only if I do it quick enough before he draw his blade again. Anyways, thanks for yall's tips.

Serves ya right

If you're on PC, simple solution:
Step 1: ` key
Step 2: click the follower
Step 3: type "deactivate"

Will temporarily remove him from the game. If he respawns in any way, simply repeat the process.

If on 360/PS3, as stated many times by other users reloading seems to be the only way until patches are released.

I have a similar problem I started the companion quests and since then Farkas wont leave me or stop talking to me(this is on ps3)

Uhh... keeping as few saves as possible on your PS3 limits issues?

Thats utterly, completely, wrong.

I have 20 saves on my PS3 and 19 of them work perfect, the only one that doesn't is my bloated pre 1.2 save.

Have you tried sheathing your weapon repeatedly?

Otherwise its time to pay that bounty or just go to jail.

Having only one save file is... just... MAN.

Hmmmm... so that's why he starts dialogue me when I'm doing not-so-legal things...
He says something like, "I'm still here..."

Of course I should mention, we were bonded at the temple of Mara Which means he's not gonna go about arresting his mate... *giggles*