What they got right: Even with the "Coda" issues being merged into AHM, this is still the finale to a 12-issue arc, and what a finale. It's a regular battle royal. In the mess, we get some more insight into Decepticon thought processes (almost but not quite mirroring the Klingons in modern Trek), and Thundercracker finally lives up to certain aspects of his old profile, although from a different perspective than I would have thought. Despite some hiccups in this series, everything wraps up nicely outside of the lingering continuity issues from "what if" becoming "what is", which should be addressed in the "Coda" issues.
What they got wrong: Those issues include how Hunter ends up back in his Sunstreaker armor, and a prisoner of the Insecticons. Why ruin his happy ending, especially as it's one of the few things Furman did right? Also, is Shane (via the opening pages with Sideswipe and Bombshell) suggesting that Bombshell just pulled a "Leslie Thompkins" (ask a Batman reader)?
Recommendation: Although the series as a whole had it's up and downs, I still found it more enjoyable than Furman's work, and I'm curious to see how the new direction works out. We'll have to wade past the "Coda" clean-up issues to reach the ongoing series first.