Yes! I think there are more than a few here who like the 4-man band version best (myself included). ATOTT (IMHO) always sounded like the more proper sequel to SEBTP than The Lamb did. The Lamb was completely sui generis to my ears - great, but wholly unique in the Genesis catalogue. ATOTT and W&W continued the classic, established "Genesis sound" starting with Trespass all the way up to SEBTP.
I was always amazed that they were able to lose PG and continue and then lose SH and continue - neither of those are easy things to overcome. Heck, even in the early days, losing Ant Phillips made them consider not continuing briefly. They really are one of the most resilient bands ever.
...and I just realized I didn't say what I voted for when I wrote this!
Voting for three over the whole range of the band is really difficult (as many properly have said) - I went with W&W, SEBTP, and Duke.
If I had the freedom in the poll to vote for top three from 1970-1977 and then 1978-1998, that I could do much more easily: in the first group, it would be W&W, SEBTP, and Nursery Cryme (w/ ATOTT virtually tied); in the second group, it would be Duke, Genesis (i.e., the eponymous 1983 album), and Abacab (w/ ATTWT virtually tied).
Tough to do a full-ranging poll with a band who evolved so much...