Credentials: I used to be in charge of an experimental biodiesel feedstock program for the largest biodiesel refinery in the US... I'm new to the forum and haven't yet purchased a CUCV, so I figured I should probably open with that.
Biodiesel will run just like dino diesel unless you are running at the ragged edge of the engine's abilities due to biodiesel's a slightly lower energy content (about 7% off the top of my head, but there's a lot that goes into that figure); though we're talking ragged edge of the ragged edge of the sort that's essentially only theoretical. Differences in CFPP (Cold Filter Plug Point, or the temperature at which the fuel starts to gel) can cause problems. If you run really poor quality fuel for a long time and your system is thoroughly gummed up without appropriate filtration, running biodiesel can pull gunk off lines and clog things up (once it stops clogging filters though, your system is a lot cleaner!). Additionally, very old rubber (the dried cracked kind that probably needs to be replaced) can be affected by biodiesel. It sounds like you pretty much got to check all the boxes. If your filters have stopped clogging and your rubber lines are all replaced, as long as you run a seasonally appropriate mix you should be fine with the biodiesel going forward. It sounds like things are already fixed and done, but I thought that bore clearing up.