If I remember right in 99/00 they made two transmission input shaft sizes for the 6 speed. 1 1/4" and 1 3/8", the 1 3/8 is much stronger. Look at the starter, if you have a 3/4" spacer between the starter and bellhousing then you have the larger shaft.
In the same period they made SO 6speeds & HO 6 speeds.