I don't see a problem with the floppy connector.
The resistors network are connected to the reset and data bus lines. I think they act as a terminator to minimize bus interference.
The common pin (pin 1) being connected to the ground of the other (top) resistor network. I see nothing interfering with the floppy circuitry. But maybe there is a short, or a cut trace somewhere. You can check the continuity between ground and signals with no drive connected on IDE and floppy connectors.

GabrielKnight123 wrote on 2023-03-02, 11:14:

I tried scandisk on a good one with a surface scan after initial checks and it said the FAT media byte was missing so it replaced it

And that might be why DOS sees the floppy as 360K. Don't let ScanDisk "fix" things that are not broken. Use Norton Disk Doctor instead if you have this issue.

In general: DOS is stupid. It writes proper media header on the floppy but will only ever use the media byte or a BIOS drive type and hardcoded values for access. Try formatting a floppy (that has not been "fixed" by SD) with /U param, see what comes of it, but this might be a software issue, or a subtle hardware issue that causes DOS to mis-recognize the floppies.

I checked if there was a short for both IDE and the floppy connecter and there were none, would it matter if dos was not installed to the hard drive through this motherboard it was installed on another motherboard and I connected it to this one

What matters is how the BIOS is configured. If you replace your hard drive, change the setting in the BIOS config utility accordingly, or if applicable check the drive is auto-configured correctly. It is the same for the floppy disk drive. Check if its configuration is OK, sometime setting 1.44MB is not enough. If you do not know what to change, please provide us some screen shots so we can try to help you looking at the options available.
Another thing to do is to check your cables. Those old ribbon cables are sturdy but after a lot off plugging/unplugging incorrectly the top of the plug itself can break and pop off, loosing some wires connection. The plugs contacts themselves can corrode too. So that's always a good idea to check the cables and to clean them (check online how to do it, there is a lot of resources on how do to it for any type of electrical connection). Also if a cable have multiple plugs, the plug used to connect the drive matters, especially for a floppy drive.

For now I've given up on this motherboard I tried using an ISA I/O card to see if I could get the floppy to work which it did work but then I connected a CD rom to the motherboard secondary IDE and I cant get it to boot fully it freezes after the ram count and the energy star in the top right hand corner stays too, I've tried removing all drives and loading bios defaults, reseating bios and CPU and ram but she wont boot so its going in a box for attention later in about 50 years or more, I hate this board but the bios options are good one thing I haven't tried is a bios update