Here's an online tone generator: https://www.szynalski.com/tone-generator/. If you can locate the frequency and play it continuously through your speaker, it'll be easier to pinpoint the source of the problem. The most likely culprit is a duff glued connection - so look for locations where the cone, surround, centre dome and suspension are glued, or else faulty glue joints in the cabinet itself. Don't rule out things rattling inside the cab, like speaker lead-out wires or internal wiring.
It could be anything, but I did see a couple of these drivers where the domes were not properly glued to the cone. So I would check that area closely.
I may have misunderstood the OP earlier. Did you replace the horn flare but not the compression driver? If that's the case, you still need to consider the possibility of a faulty compression driver.