"Has anyone encountered such an issue?" : Yes!
I get the same thing, but I find that after a while (sometimes months) I like to hear the original again because, inevitably, my own version won't be identical.
"Is that a good or a bad indicator?": I think it's neither. It's just how it is.
It's probably just overfamiliarity, but with a twist:
It seems to me that when learning a song, you have to listen to it a LOT, unravelling how it's constructed and kind of de=mystifying it. A bit like knowing how a magic trick is done, but with less subterfuge.
Once you've done that and learnt to play the song, it represents less the thing that you enjoyed just because you liked listening to it, and more of a technical set of things to get to grips with.
I find that eventually, once I'm comfortable with playing a song, I start to enjoy the orignal again as that set of technical guitar stuff becomes just 'yes I can play that', and not so much a dominating factor.
I even get this with songs I've written: After recording them, I listen to the recording a lot for a day or two then don't put it on at all for ages. Then, some time later, maybe weeks/months once the intense familiarity has died down a bit, I really enjoy hearing it again.
In a nutshell: give it a whlie, I bet the enjoyment of listening to the original will return.