I think thats correct. Didn't they show the CloneA chip replacements actually plugged into an A500 motherboard at some show where they had a contest to see if anyone could bring something that would run on the Amiga but not with the cloned chips?
What you replied to was actually an incorrect assumption.
They showed CloneA chips plugged into an A500 motherboard just because they implemented each individual chip separately and that was the best way to test that they indeed worked identically to the originals.
Jens later said that the final CloneA was not going to be like this, but everything would be munged into a custom motherboard / perhaps larger fpga.. Unfortunately I don't have any links to back my claim right now and am in too much of a hurry to dig them up..