Would a cyberlimb for a troll also still begin at 3's for stats before cusomizing? They have min 5 strength and body as is. If they got standard cyberlimbs, would their attributes technically drop if they had replacements with normal cyberlimbs?
By the Rules As Written: Yes and yes
Would you rule that their cyberlimbs begin with 5's but up the cost or accordingly? Is there some ruling on that someplace, or could you drop cyberlimbs with attribute 3 on them and since its stat 5 minimum for trolls just assume if its below 5 it IS 5 until they are worth enough to begin pushing into positive bonuses?
There's no actual ruling like that. Anything to alter it from a flat 3 is a House Rule decided from GM to GM.
That said, in any campaign
I was running I'd have them starting at (Metatype Minimum + 2), since 3 is 2 over the Human minimum. The price gets boosted accordingly, but the availability stays standard since it's still a "stock" cyberlimb, just of a brand targeted towards Dwarves/Trolls/Orks/Elves.
That mean a Troll would get Strength and Body 7, not just 5, Orks get Body 6 and Strength 5, Dwarves get Body 4 and Strength 5, and Elves get Agility 4.
As for people cheesing and getting cyberlimbs for the wrong Metatype... Trolls and Dwarfs just have major size issues that prevent cross-compatibility, other than that I'd simply slap <Metatype> Poser on someone buying an Ork or Elf cyberlimb that isn't one.