The IR Flares active module rarely sees any use because of it being too singular in function and inferior to various radar-jamming modules. The only reason you’d ever build up one is for more Prestige. So, to make it more functional, I suggest that the IR Flares module be made into a charge-centric one.
To illustrate, the module would be given, say, 3 charges, each with a 2-second delay between uses. Each charge takes _ X _ seconds to replenish, and you can store up to 3 at a time.
This would allow you to deflect multiple missile attacks over a short period of time, rather than just deflecting a single attack by using a radar-jamming or cloaking effect. The IR Flares need something to give them an edge over other modules, and this could be just the thing. Even if the recharge time on IR Flares is good, it just doesn’t compete with those other options due to its lack of versatility.
Of course, this is just theoretical, so don’t flip out over it.