Linux is not a supported platform for PSoC Creator and PSoC Programmer as mentioned in the release notes on page #11 and link-
Which version of Kitprog are you using? Can you please update the kitprog version to the latest and then test this?
I face the same issue. Mine is KitProg Version 2.21 (the latest I could get) on a CY8CKIT-044. I would love to get the USB-UART functionality on Raspbian / Ubuntu etc.
The trouble is, the P7.1 (PSoC 4M UART TX connected to PSoC 5LP programmed as Kitprog) is not even on the expansion connectors.
I just solved the issue regarding CY8CKIT-044. There is no connector for PSoC 4 P7.1, but this pin is connected to the PSoC's 5LP P12.6 and this pin is on an expansion connector near the PSoC 5LP.
Anyway, If I could connect the kit directly to USB and get UART data from PSoC 4, that would be great. My workaround is an FTDI cable.