battery drain

[superman3405]

I have had the truck sitting still while I work on the body. I had to move it today and dead battery...I hate electrical problems. Here is what I have checked have I missed anything?
Battery cables, cleaned and reconnected
ground, checked all grounds to the frame.
fuse box to see if any drain while truck is off,,,none that I can tell

I think it may have something to do with the fact that I put a 94 amp internal alt. on it recently. I rewired the external regulator as one of the post here explained. Two outside plugs wired togehter and two inside plugs together. Could this be my issue??please help. Thanks a million!