If you can find a DPE who will do the MilComp for $40 you have a pretty good deal. I've been helping guys do this for 10 years and never found one that cheap. IF the FSDO will do it, that is good. BUT, I have found that each FSDO has varying degrees of understanding what military paperwork should look like and what an applicant should get. I am on the edge of three FSDO and it is like working with three different FAA's, even though they sweare they work from the same regs and ops manuals.
Make sure you get the II and the CFI SEL and/or MEL as appropriate.