He solicited ideas for the BOR from the thirteen states, and consequently a lot of them were redundant, yes.
"... the 13 state conventions produced a dizzying list of recommendations-210 different amendments to be precise, covering 80 different areas."
-- firstamendmentschools.org/resources/newsweekone.html
As to his rejection of the amendment, it's my guess that it went against the whole concept of independent states. (IIRC, only five had state constitutions at the time of the signing of the Constitution, and he encouraged the remainding states to write one!)
" Madison urged that No state shall violate the equal rights of conscience, or the freedom of the press, or the trial by jury in criminal cases, but this was rejected apparently because Congressmen wanted a bill of rights applying only to the central government, not the states."
-- libertystory.net/LSUNFORGETBATTLEFORBILLRIGHTS.htm
IOW, you don't really know, and holding up that rejection as proof the the FF never intended the BOR to apply to the States is an empty bluff.