... I am sure the problem is with the seals. The windows operate perfectly with the door open. ...
I am not so sure.
The fact that the window goes up and down smoothly when the door is open is no guarantee that the tilt angle or the center position (->front / <- rear) are NOT misaligned. If this is the case you may not notice it when you are cranking the window up and down when the door is open.
As you know, and as you can see in the attached photo, there are only three areas where it can have too much friction, either on the front or rear edge, or the inside side edge, or all three. You need to find out which one it is by having a helper inside cranking up the glass while you watch and see where it hits the seal. Initially on the A-pillar these areas should only lightly touch the seal and only when you go up close to the top should there be pressure on the seal.
While the fabric helps to cut down friction a bit - it mostly helps to prevent scuffing up the side edge of the glass - it will not make that much of a difference compared to bare rubber. But you can test that yourself by spraying some soapy liquid onto the rubber and check whether it now goes up more smoothly.
As an aside, the white speckles visible in the photo are the wax that is released from the OEM seal - it takes forever to get that stuff off!!