Color printing problems: Single documents vs batch printing

Question

I'm using a Canon C5250 to print 550 PDFs (15 at a time in batchs). The colors  on the singly printed PDFs differ greatly from the colors on the batch printed documents.
I have created settings on my computer to manage the color, but the settings don't seem to apply to batch printed documents.
Thanks!

Answer 1

I am using Acrobat XI Standard. I realize now I'm probably on the wrong forum.
Once I open a folder with multiple (4-125) PDFs my selections are Organize, Burn, New folder
Once I select an individual PDF or multiple (up to 15) PDFs, my options are Organize, Open with Adobe Acrobat XI, Print, Burn and New Folder.
My problem is that the color I get when I select a group of 15 PDFs and select Print from the options that appear as described the color from document to document is inconsistent.
I can open each PDF, and even a group of PDFs, and print them singlely and I get the correct color--time after time. Repeating this process 550 times for the set of reports that I print is not the desired process.