This is a general color management phenomenon and is not specific to
InDesign. What happens is that you convert colors from one color space to
another and this will almost certainly lead to color shifts and most often
to black being separated to several plates.
What you will need to do is to make sure that such conversion does not take
place. Simply put you have two options:
1) Turn off color management. This is the safe option until you have gotten
the hang of color management and you can do it at output time only.
2) Or, make sure your document (including linked cmyk graphics etc) is
tagged with the same profile as your final output device (in this case your
printer wanted US Web Coated (SWOP) v2 so that would be it) Once the file is
properly set up you choose to print using the document color space as both
source and destination
Before you send it to Distiller it makes very good sense to print
separations which will tell whether the black separates to one plate only
Slowwwwwly my memories of color management issues are returning to me now......it is not something I have to think about very often for the past couple of years because none of my settings have had to be changed as I have had everything set up for newsprint.....and our newspaper is the only thing we have been printing up until now with the addition of the magazine. I am glad these "problems" occurred today tho' as it has forced me to revisit the very important issue of color management once again.
Thanks once again:)) I am glad to say I am over that bad panic attack I had this morning .......