Something that occurred to me the other day (and I apologize if this has already been discussed) is the waste of resources and impracticality of Multi-Vector Assault Mode.
A Prometheus-class breaks into three parts to fight. Each separate part is a relatively decent warship (especially compared to Klingon ships ), but if any single section is significantly damaged, the whole ship is going to have a hard time going back together.
An Akira equipped with 6 Peregrine-class fast attack fighters (see other thread) can launch its fighters for "MVAM" and have one hugely powerful warship flanked by 6 smallcraft with torpedoes just as powerful as any carried on the Prometheus sections. While the Peregrines are easily taken out, it doesn't cripple the Akira to lose any of them and the Akira can take a pile of damage herself.
Starfleet needs to forget MVAM and put out more Akira's and Peregrines. The Prometheus is an interesting experiment, but in the long run its not going to separate any more than Galaxy-class ships do- and for similar reasons.