Preamp inputs - different quality

Do your inputs have a specific application or are they just numbered 1, 2, 3, etc.? I have heard in certain cases that some inputs do sound different because they are wired differently or are for different sources. Also, is it possible that your "input 1" hasn't been used as much as "input 2"? Maybe it needs break-in? Wow, I said "different" three times in one sentence!

They're just numbered 1-3. I moved my CD player cable from input 1 to 2 and heard the difference. Input 2 has been used less.

Bigamp, Are you sure the input trim levels are all set to the same value? Go through the menu to set both level and balance for all inputs you use. Z.

FWIW, Charles Hansen of Ayre believes very strongly in the concept of break-in for input connections. Most of us, I imagine, use one more than others.

This may be a long shot, but is each input individually adjustable for gain? My Levinson preamp has this feature so that all inputs can be adjusted for uniform volume.
If so, it may be that the inferior sounding input simply is set a tad lower in gain, which we preceive as sounding veiled?