Btw you can still buy 3.9 here:
Doesn't help, does it? You need something on floppy disk which boots the computer and has CD drivers.
All you need is on the 3.5 CD, but without CD drivers you cannot read it.
BTW, 3.1 floppies don't help, either. You can boot the Amiga and install OS 3.1, but it does not have CD drivers. You also need IDEfix software or something similar to recognise the CD drive.
Unless the CD drive is a SCSI drive connected to a SCSI controller, probably on an accelerator. Then the CD drive is recognised and you can use the CD0 driver which comes with the 3.1 floppies.
Or in case the accelerator is a CyberstormPPC or MK3, then you might be able to boot from the SCSI CD drive by setting the relevant options in the firmware menu.