I must say I was blown away when I first loaded STA2: Fleet Ops... Its like Activision listened to my incessant whining for an Armada 3! I've been learning a bit about the Armada 2 mods like Future 1.0 and various ship-addins, but this is just mind-blowing.
Previously I had enjoyed Future 1.0, with its much faster pace; but I was bugged at various flaws in the ships and terminology. The whole mod needs a spell check, and the ships need to be put to scale since a Prometheus is slightly larger than an Intrepid, not a Sovereign.

and the Klingon 'refits' that are entirely new vessels.
I'm still getting used to the concept of trying to balance smaller destroyers and frigates with larger capitol ships and dreadnoughts, but I love the new concepts such as using avatars to select more offensive or defensive play right from the beginning.
Though going back to a non-warp setup is a game pace adjustment, I don't think it would hurt to add one or two warp capable ships, such as a slip-stream intrepid of trans-warp borg scout. That kind of surprise fast-attack harassment definitely adds another dimension to a game without destroying the whole. It would be analogous to the way an F117 or B2 can appear unannounced and pop off a few shots before its even noticed

whereas the cloak-capable vessels in game have to appear, decloak and then attack, being severely vulnerable before they can do any damage to a fleet sitting in port or a heavily defended mining operation. (with the exception of the Romulan sabotage of course)
I've yet to have a chance to play the Borg, so no chance to quibble there (my favorite tactic from un-modded Armada 2 was to sit in a defensive posture and build a fleet of cubes and assimilators and then just sweep through an enemy base, co-opting their forces to destroy them

)so I look forward to this finally being unlocked.
As to classic ships? who doesn't love them? However, its difficult to justify constructing an Excelsior (from a story line point-of-view) when you can build a far more modern akira for the same investment in materials. So unless this turned into a mod-within-a-mod thing or some sort of campaign-mode level, why bother?
I do miss the self destruct option for capitol ships... If you have to lose the thousands of units of resources invested when a Sovereign or Negh'vagh is trapped without any escorts, its nice to be able to exact a little retribution. Besides, this has cannon significance with events in Trek IV.
Anyways, aside from a bug where my scout ships stop scouting and start engaging in OCD behavior zipping back and forth around a few asteroids , I like everything I've seen so far!
Keep up the good work and there's my 2¢ worth.