Hello @keith1,
if this issue is still relevant for you, I was able to run a successful UART test with the isolated LPC and with MCU Link Pro:

I don't have an RT1060-EVKB but I have tried it on an RT1060-EVK. The UART behavior should be identical, just the layout of the board is a bit different and the jumpers have different numbering.
I removed the UART, SWD and JTAG jumpers, same as you. I connected the purple wire from MCU Link (VCOM IN) to UART1_TXD and the grey wire (VCOM OUT) to UART1_RXD.
I have a hello world example running on the board with the terminal echo functionality (whatever you type in the serial terminal gets echoed by the device) and when using internal boot, I can talk to the device over a COM port. When using SDP mode, I can do the successful test in the Secure Provisioning tool.
One thing I noticed is that sometimes when I reset the EVK while the UART wires from MCU Link are connected to the pins on the EVK, the device doesn't boot properly. I recommend you first remove the jumpers, set the boot pins to SDP, reset the board and as the last step, connect the UART wires. This way it's worked smoothly for me.
Let me know if you need any more info.
Best Regards,
David