OK lets do a little house keeping so I understand the configuration.
(1) Does the SP display the Waterloo menu when you switch from 6502 to 6809 ?
The Waterloo boot screen will also display if you disconnect the ram board.
(2) Are the toggle switches set as follows?
Toggle Switch U11 - set to off
Toggle Switch U12 - set to RAM
Toggle Switch next to the 6502/6809 - set to R/W
(3) If the RAM test still fails, when it drops into TIM, type
m 2245 2245
You will get a line of hex numbers displayed, the first will be 00 (BRK)
Move the cursor to 00 and change it to 60 (RTS) and hit return.
Type m 2245 2245 and check the number has changed to 60
Hit x to exit
Re-run the program, It will go into continuous loop of cycling through all the RAM on the board. If all the RAM fails then it is a different fault on the RAM board of 6809 board. You will have to power off to stop the test.
(4) If they do fail then check all the connection are good and you have 12v, -5V and 5V coming out of the voltage regulators on the RAM board - I am assuming you are comfortable doing this with a voltmeter, if not then leave this step out and others can talk you through it.