Here's a vote for Admiral2's
excellent tale, The God Machine
. It's set in an alternate-Trek Pike-era universe, similar to (but not identical) the one we know. All the familiar races are here, but Starfleet's a leaner, meaner, more military organization.
Anyhow, great stuff, and I highly recommend folks give it a read. There's a link to it on Admiral2's
post here on the fanfic page.