How about this:

On boarding maps and maps where the objective is to take enemy vehicles... have a slicer class. Perhaps a different weapons/equipment load for engineer or squad leader, if not an extra class (though, in space maps, another class couldn't hurt).

The Slicer could, with a datapad/droid/whatever, interface with enemy computers, re-designating equipment/vehicles/areas to the new faction.

This could work like an active flag-taking effect -- take out your device, use it like a repair tool in reverse. You count down slicing/hacking the enemy's control, making it 'neutral', then continue slicing to slave the device to the new faction.  It could work as an alternative to the usual small victory conditions of taking a flag, or blowing up an objective.  Ideas could be taking control of the bridge of a capital ship, reprogramming a droid, unlocking bulkheads (to continue through a boarded ship), stealing fighters, etc. Until you get a slicer in there, nobody in your team can use it -- much like you can't spawn at a flag until it's taken.

The bulkhead idea could work in another way: say there's a heavy door blocking you from the next section of the star destroyer you're boarding. The side who controls the bulkhead could open/close it to send troops through to the next hall/flag. Alternately, you could just have people fire at the door and blow it up -- but then neither side can use it as a defense/choke point -- it's just gone!  So, you could have slicer(s) working on taking control -- at the same time more slicer(s) on the other team are fighting to keep control.  If they're at an impasse, good for the defenders; if the attackers can't get an edge, they can blow the door. 

As an extra option, you could have Commanders be the only people able to control opening/closing the doors. Then they could request slicers to a bulkhead, or defenders for a slicer, etc. Just something for a Commander to do.

And it's a major strategic and tactical advantage: you can take control of the doors -- and have more control of the hallways, or take the long way around, or blast the doors and be stuck with an Episode IV boarding situation -- no more door, just lots of crazy shooting in that area.

Five slicers working together can do the job faster, just like engineers repairing vehicles -- but they're vulnerable.  If there are multiple ways to get to the area, like a long, circuitous route through narrow passages (or if your side has taken the bulkhead with enemies already on your side of the door), having all slicers (who'll just have a pistol for a weapon, anyway) -- you're going to need other classes to help defend those slicers. Sort of like a stationary version of four guys standing around inside an AT-AT repairing it while others drive and fire.

For stealing fighters, you could even make it so only pilots can fly fighters... but only slicers can gain access to enemy fighters. This gives people who don't like dogfighting something else to do, and makes it useless to have all pilots or all slicers (unless you don't want to advance, and just take control of all the vehicles).   Alternately, you could give the pilots a slicer tool/droid and they'll have to take slice the vehicle before they can fly it. That would give everyone the option of flying or slicing, as well, without making people feel straitjacketed into a situation where they want to fly, but just have to stand around waiting for a slicer...

These thoughts came to me after reading the posts here, and thinking about Han "hotwiring the thing" at the bunker on Endor's moon, and the many other times R2-D2 opened a door, talked to the hyperdrive, etc. And, the other option -- Stormtroopers blasting through the Tantive IV's bulkhead, Luke blasting the door controls, and Chewbacca ready to use the AT-ST's gun on the bunker door.

Just boxing outside the think.