With two pickups, the SE-2A's balance pot will allow you to control how much of each pickup you hear (all bridge or all neck or a mix of both). And, you're correct, you will need a separate control if you also want to select individual coils from each pickup (assuming they are splittable, 3 or 4 wire pups) . A 5-way switch could work, but would probably make things harder than necessary.
Instead, an On/On/On mini-switch for each pickup would allow you to select one coil/both/other coil etc for a switchable option. Or, one extra concentric pot would allow you to control the single coil/humbucker blend for either pickup, or one dual-ganged pot could control the single/humbucker mix for both pups at the same time. The mini-switches would probably give the most versatility and keep with the 'fairly simple' theme.