Wanted to update this thread a bit. I ended up getting a fantastic deal on a 4000T, which I detailed in another thread, so decided to move this CF card reader to that machine. Instead I ended up moving the 1.2GB Quantum SCSI drive out of the 4000T and put it in this 3000.
After replacing the battery I found it only lasted a couple of days. Checked the voltage and it was very low (~1.5v I believe). I assumed it was simply a bum battery and replaced, but sure enough the new battery only lasted a couple of days as well.
I did some searching and found a user with a similar issue from way back in 2006 and he said his problem ended up being a diode on his 3000, D191. I did have a lot of battery corrosion around D190 and D191, so I took a shot and replaced both diodes (1N4148). It seems to have cured the issue, no battery loss in about a week!
I also added a HD floppy drive from a flakey 3000T I ended up acquiring.
While doing final assembly on this 3000 I made a big mistake - I offset the SCSI cable to the right by 1 set of pins and did not notice until I tried to power it on. I then started experiencing flakey SCSI & boot issues. With the help of Mech (
www.a4000t.com) over IRC he helped me determine I had no termination power (check SCSI cable pin 26 for 5V). This lead to a possible bad diode at D800, which just happened to be the same type of diode I had just replaced so had extras! I replaced the diode, which he informed me was actually backwards on my board, and everything was good to go. Crisis averted.
Anyway, this 3000 is now closed up and I hope to start using it soon. Just wanted to cap off this thread (for now!).