Distributing your own papers in your thesis
I don't understand why you are repeating the same material twice in your thesis. Each of your three papers is re-cast in a separate chapter in your thesis, and then verbatim in an appendix. 

You most likely have assigned your original copyright in your papers to the journal that published them.

I think adding the papers as an appendix is unnecessary, and may fall foul of the journal's copyright. The interested reader should be pointed to the journal article relating to each of the three chapters. 

If you reproduce substantially the same figures as that which appears in the journal -- to whom you've presumably assigned the copyright in the figures -- then you will need to ask for a license to reproduce those figures.