Well I know the Cannondales are still spec'd with Ultegra on their Synapse 3, Supersix 3, and CAAD10 3. For Trek, it's available on their Madone 5 series. For Felt, it would be the ZW4. With Specialized, it's the Ruby Comp...however it's an Ultegra/105 mix (I hate when they do that!). And for Giant, it's the Avail Composite 1 (again, a mix of Ultegra/105).

When I bought my Synapse 3 2 years ago, I wish I had done my homework on it. Back then, the 2010 model had a mish-mash of parts (to save money I assume). My bike came stock with Ultegra shifters/brakes and FD & RD, an FSA crank, and a SRAM chain and cogset. That bike never shifted smoothly from day 1. It wasn't until I swapped out the SRAM cassette and chain, for Shimano parts...that the bike finally started to shift better in the rear(still not perfect). And to this day, I think that FSA crank is the root of my front ring shifting problems. But I'm not saying that this is typical of every bike with an Ultegra/? mix. It could just be that I ended up with a messed up bike, so YMMV.