Section 4 of proposed Article XI, when debated in convention, was disapproved by the delgations from North Carolina, South Carolina, and Georgia.
If you will go back and review what I wrote ("the Framers were not unanimous in their views on the Suspension Clause"), and the construction you put on it ("... believed that the habeas corpus clause applied to somebody other than Congress"), are two differnent things.
Indeed, and both of them personally believed that the writ should not be suspended, finding the suspension clause undesirable. But neither of them had any doubt that the constitution as adopted (meaning whether they liked that clause or not) gave the clause to Congress, nor did anybody else in that era.