w2e Sorry I am a little confused...

1. my store export files do show 2 id with the same products...?
2. "product debris"
are to separate issues,
1. Give a example of your .csv, have you got this product in two catorgies ? If you have this is normal as if you look at the cat. that those product id's are in will be different.

2. 'Yellow bar'
x.Number; partially deleted product(s) found! Delete this dross to prevent unwanted zencart behaviour by clicking here.
You are seeing this because there are references in tables to a product that no longer exists, which is usually caused by an incomplete product deletion. This can cause Zen Cart to misbehave in certain circumstances.
at the top of EP main page is a known bug in this version