Not sure but you should be able to give it a try... what is the part number of the modified cable you want to try?
I just tried a CN220 and it acts strange, I went online with the CJ1M using the CN226 but when I tried the CN220 and the DB9 port it acts like its going online then gets bumped off.... the DB9 port I think is configurable so that maybe the issue, it sees the PLC but can not upload just a guess
You can connect to the Serial Port for programming by setting DIPSWITCH 5 to OFF and using Custom Settings for the Host Link Port tab in the PLC. Make sure you have the correct pinouts for the serial cable.