TrimixToo
Contributor
If it's not the same make and model (or you forget to set the right mix), then you might find your backup is bent into one hundred nazi crosses when you need to use it, and you have no computer for 24 hours. Whereas on the "clean" backup you can up the conservatism to somewhat compensate... It's not optimal either way.
Or, you can run the dive using the more conservative of the two. Then, if it fails, you can choose whether to pad what the less-conservative one recommends or just run the remainder of the dive with it.
Also, if something goes wrong, you can ascend using the less conservative one. Some technical divers do this on purpose by setting different levels of conservatism in their (perhaps identical) computers. For example, my Petrel is set conservatively, and my VR3 is not. There is often a 10-15 minute difference in time to surface between the two.