I think, frankly, if there's a desire for better strike capabilities, going with a combo of a multi role fighter that doesn't compromise air superiority and can carry external loads with a large payload strike UCAV might make a lot more sense than trying to force larger weapons bays into the design.
I agree that UCAVs are definitely an important way to go to facilitate a greater capacity for conducting stealthy strike operations, but I don't expect UCAVs of that size and complexity to be ready for operation until something like after 2025.
Given the place of network centric/informationized warfare and the importance of datalinks and increasingly smart weapons in modern warfare, I think a naval fighter which compromises a little in terms of stealth and/or kinematics, to allow it to carry larger diameter powered payloads like JSM or AARGM-ER sized weapons is a worthwhile trade.
Keep in mind the JSM and AARGM-ER aren't anywhere near the size of a YJ-12 or something, and are closer to the volume of an AIM-120D (or PL-15 I suppose) than anything. Yet that extra little depth and length in terms of the weapons bay provides substantially more flexibility in terms of weapons suite choice.