I recommend you try to get hold of a copy of the Fujimoto instructions. This is important, you can easily kill such a unit in short time by not following the correct procedure for setup and running. Processors have to be levelled, pumps primed etc.
Then, download the Kodak instructions on Ektacolor chemicals for RT systems. It will answer a lot of questions.
Standard setup for RA4 is DEV, BLIX, rinse (or STAB). In a RT system, the rollers will normally remove excess solution from the paper and any carry-over should therefore be minimal and will be taken care of by replenishment of BLIX. I would not bother with a STOP bath unless you encounter problems. The situation is different when working with drums or trays, obviously, as carry-over of DEV to BLIX is a much bigger problem there. I don't know how the rinse stage in the Fujimoto is designed, but I would probably give the paper additonal rinse outside the machine for peace of mind.
Pre-wet is not necessary in a RT processor, it might even be detrimental. I have no knowledge of the Fujimoto, but in the case of my own processor the DEV tank/rack system differs from the others in the way it is designed and the solutions are circulated (it has an additional filter device and makes use of an array of "jets", in lack of a better term, to help uniform DEV). So, if you use the DEV rack for pre-wet and the BLIX rack for DEV, you might get inferior results.
Starter can be ignored when using solutions one shot. However, if you replenish (manually or automatically), which is what you normally do with a RT system, you should make use of the starter solution and mix your initial batch of DEV according to instructions. If you do not replenish in a RT system, your results will not be repeatable and quality will gradually suffer.