Your problem is that you have 2 EFI partitions. There should always be only be a single EFI partition for every OS. With Windows you may have a second one but you may not let it confuse those two. If you can delete the EFI partition on your Windows disk but are not able to do so on the Linux disk, then Windows probably relies on the EFI partition installed onto the Linux disk.
So if you would remove the Linux disk, Windows would not be able to boot. You have to check if you can change the EFI partition Windows uses, in case it actually relies on the one being present on the Linux disk.