Okay, couldn't wait for an answer to my questions so after calling and talking with one of the Mechanics at my local Allison dealer I found out:
1. You should put the trans in Nuetral, and the trans case actually has marks on it where the shift shaft should line up with!
2. Keep the locking device on the NSBU switch until you've got it started on the shift shaft.
3. The nipple on the NSBU between the connectors has a one wave valve, so if water gets in from somewhere it should drain out the nipple!
Mine is working fine now!!!
