If you use the 29mm shafts you might not have enough up travel.If you do not use the AE shock boot that will give you some more up travel to help compensate.
I am running the truggy tower with the buggy standoffs. Same thing with the the rears. You need to cut the bump stop off of the AE boot if you want to use those. I am using the jammin boots. It's a really tight fit at the top but you can get them on there.