So the question is a bit different. It is not if I can "fix" it. The question is, assuming I can get both their frequency responses to match exactly - would they sound the same?
You will not be able to get their frequency responses to be the same. For one thing if a driver has an Fs of 32 Hz and the other 18 Hz, then the 32 Hz Fs driver will never play to 20 Hz no matter how much Eq you use, the 18 Hz driver might well. It is totally impossible to Eq a driver to sound like another, this is for lots of reasons, Fs, maximum cone excursion, points of cone breakup leading to resonance and issues of stored energy. There is a lot more than just the same frequency response to getting two speakers to sound the same. As I have said here many times, it is perfectly possible to make a speaker with a perfect frequency response, that would be totally unusable as a speaker and sound like nothing on Earth.
You are asking a question that you could only ask if you have not the first idea of speaker technology.
Speaker design has to follow this process.
1). A clear and precise statement of your aim, purpose and usage of your design.
2). Very careful driver selection
3). Accurate box design and modelling, which includes the optimal box for that driver. This includes whether, sealed, ported, or ABR is appropriate for the driver you select. Consideration can also be given to TL and horn and occasionally infinite baffle.
4). Careful cabinet plans to minimize unwanted panel resonance.
5). Careful testing and listening.
You do it in THAT ORDER
One thing you never do is take a box and try and select a driver. I can not stress enough that does not work. There is only one way to do this, and your method is well wide of the mark for producing a sub that would in any way be an acceptable performer.
That is just the way it is. Wishing another way, is just that, wishful thinking.
Every engineered product and device, has its own discipline of design and engineering parameters. I have just given you a brief outline of the discipline of box design for speakers. There is no such thing speaker selection for a box. I think that your approach is commonly known as ass backwards!