CMYK layers showing up when spot color illos placed in InDesign CS3

When I place an Illustrator CS3 (13.0.2) illustration into InDesign CS3 (5.0.3), Preflight tells me that CMYK colors are being used, even though the imported illustration has only 2 Pantone spot colors matching those used in the InDesign document (the 2 spot colors show up in Preflight as well). I double-checked to make sure they were spot colors, not CMYK. When I go to Separations Preview, my 2 spot color show up but nothing shows on the CMYK layers. I deleted all unused color swatches in my InDesign file (and the Illustrator file), and when I delete the illustration Preflight just shows the 2 PMS spot color that I'm using in the document. I'm using Mac OS 10.5.4 on a brand-new Quad-Core Xeon, if that matters.
I've tried saving the illustration as both AI and EPS, and using CMYK and RGB color modes. I deleted all unused color swatches from both Illustrator and InDesign. For another test, I created a fresh Illustrator file that just had a box in 1 spot color and placed it in a fresh InDesign file, and again Preflight said that CMYK was being used. Besides the usual work-around of telling my service bureau to not output the CMYK film, does anyone have any idea of how to correct this? I've encountered it several times. (BTW, my service bureau didn't know what the problem is).
This is my first visit and post here, so if I have violated some forum etiquette, please forgive me.
James

Save a PDF and place that.
Bob

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