The problem is some of these files have the same artist, album, track number and title,
I'm going to guess that these are different versions of the same album. Like a remaster that was released later or something like that.
How do you identify these individual albums in JRiver? I'm guessing you have some key that tells you which album is which. I'd like to suggest that different versions of the same album, really are not the same album. Because they are different by definition. So something should tell you which is which. Generally speaking, I think adding descriptive text after the album name is the correct solution.
For example I have the album "Rumours" by Fleetwood Mac. I have it from CD and from DVD-A. The mixes are different and the sample rates are different. The album name, in my collection, for the DVD-A version is "Rumours (DVD-A)". This makes it very easy to locate and obvious to me and most others as to what it is.
Of the very few remasters I have, I do something similar. For example "Good For Your Soul (Remaster)". I could include the year in there if I wanted to, but there's only one remaster that I'm aware of so the year is mostly irrelevant to me.
If you tag your collection in this way, it will solve your current issue and perhaps future similar issues caused by all of the metadata being the same for two things which are not the same.
Take care,
Brian.