I put a Mercedes OM602 DE2.9LA (turbocharged, innercooled, electronic controlled IP, year 2000+) into my Scrambler about 8 years ago. Than last year worked with a VERY GOOD Bosch "pump house" and we made a hybrid mechanical pump for it.
Before:
After:
I'd say the most important thing is to THROUGHLY understand your states diesel emmisions laws, conversion rules... And presume that ANY state official you ask for advice will steer you wrong!
Here in the "nanny state" you can only "replace" your motor with the same year or newer and after 1997 your diesel vehicle must be smog checked and fall with paramiters of the emmisions permitted per the VIN number of your vehicle... Thus a hairy cluster***k!
The other thing about using an older vehicle is that many their computers did not use ladder logic and could be tricked into believing "all is well" where the newer systems will go into limp-mode if anything is out of sorts (Honestly i know very little about control systems, other than thugging my way through the mercedes control without having instructions).
My $.02... Analog vehicles are the way to go!