my little brother has a samurai with a 1.6 td , it's like it was ment to have the vw diesel in it .
in the last year we have put jeep leaf springs in it , toyota axles and a tranny / transfer case out of a '92 side kick in it .
a tweaked vw diesel with easily kill off the stock samurai running gear .
and the best part , if it's driven gently ,it will get 40 mpg .... the problem is that is kind of hard to do because it is so much fun to drive .
the only real issue we ran into was it ran hot , and a rad out of a '93 vw passat ( 1.9idi ) fixed that . ( i also suspect the larger passat rad will fit the older jetta's )