Ok since you are using version 3 did you enter version 3 in the options when you did the configurator? Wizard had an error I just corrected (~3 mins ago) that basically made all configurations made with the wizard use a version 4 Fusion Brain, so download the update by right clicking the MDX Updater and choosing "Update Now".
Here is the hardware manual for Version 2 and 3. Version 2 is pictured as the green board, Version 3 is pretty much identical (2 = beta, 3 = release, 4 = beta & release this time) but blue: http://www.fusioncontrolcentre.com/F...r%20Manual.pdf
Page #3 shows +5v towards the centre of the board.
Also the big chip isnt a basic stamp, but basically the same thing. It is a programmable microchip made by... wait for it... "Microchip". Also detailed in the hardware manual for Version 2/3.
That is the IO section of the config file, but I was more looking for how the Fusion Brain was declared, so right above that there should be something like:
That is what I am looking for to see what version it is looking for. The byte streams are NOT compatible so it must know which version is which by telling it.
<!-- Begin Fusion Brain Instances -->
<brain id="My Fusion Brain 0" version="4">brain id 0</brain>
<!-- End Fusion Brain Instances -->
To get a Virtual Brain, use the configurator and the icon aligned on the right (the bug for "debugging") opens up the general options. Then make sure to enable global debugging by selecting it in the top menu of the pop up window. Then near the bottom of the pop up window it has the names of all Fusion Brain instances in that configuration file. Select the one you want to debug by checking its box, and save the file. Open in MDX and 2 windows will appear, the main window and the debugging window.
I have an early start tomorrow morning so I am heading off, but if your brain version is set to 4, set it to 3 and see if that works.