well actualy if you look carefully at the way new ship are first presented to you they tend to be either from a GTVI squadron I mnea bommbers/fighters/interceptors/etc. or an SOC ship. So i would imagine that the GTVI has and will have more advanced ships the the normal GTVA fleets. Although no hades or stuff like that. Also it would be kind of hard for the GTVI to actualy renegade since we have the Grand Terran-Vasudan Inteligence. Also since the SOC is the elite of the elite I seriously do not believe they do not have some sort of base of theyr own and also a few capital ships like destroyer sized ships only more advanced. And who sais the SOC has to be 1 or 2 squadrons large?? For all we know they could be like anywhere form 10-20 squadrons with theyr own base of operations, destroyers and stuff like that. I have yet to see a secret service or an elite branch of the milatary use standard equpment for theyr operations.
(NB: Galactic TVI, not Grand)
a) a cursory scan of the FS2 briefing text doesn't show any mention of the GTVI beyond them either being provided with information, or giving it to the fleet; nothing indicating any military force
b) there's nothing explictly preventing a Terra-Vasudan rebellion beyond an arguable implausibility, nor specie-ist factions of the GTVI breaking off. Offhand, IIRC the GTVA has species-split command structures for the military, so it may be that the GTVI itself is split in similar lines.
c) the SOC, offhand, is only shown to have one new fighter type - the Erinyes - which IIRC is clearly identified as operating in an Op-Eval period.
d) there is no need for the GTVI to have a military force; same as there is no need for the CIA or MI5 (etc) to have private armies.
e) the larger the SOC is, the less secretive it becomes. Plus, it's a special operations unit; it performs what might be termed 'discreet' actions, something which have a large fleet sort of negates (not just in terms of visibility, but also because the SOC uses minimal logistics; I'd wager any scale of operation requiring more than a few squadrons would actually fall out of its remit and into regular fleet operations). You already have regular fleet to do the whole fleet-scale job, after all; you wouldn't scale up the SAS to do the exact same job as the regular army, would you?
f) the SAS uses regular army equipment, with the exception of specialised (but existing; I'm thinking things like kit for hostage rescue or infiltration) stuff for jobs the regular army doesn't do. I can't offhand think of anything the SOC would need - in the context of its spaceborne operations - that isn't seen in the regular GTVA. And the stuff like, say, stealth capships, would be of such an advantage it would surely be inevitable to see it in regular fleet use.