Why does Muse upload many pages when I only have Modified Files option selected?

Question

In Muse, when I use the "Upload to FTP Host" option (my preferred update method), Muse will load 37 pages (I have almost 70) even though I have made no changes whatsoever.
I have read and implemented options suggested on this forum including this:
1.Aishvarya Raj Rastogi, 
Dec 16, 2013 4:24 PM   in reply to Ellen@McConaghy
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Hi Ellen,
It looks like your muse_manifest.xml file is corrupt. Please login to your BC site's admin, go to Site Manager > File manager and delete the muse_manifest.xml file. Publish the site again from Muse and select to publish all the files. Next time when you will publish the modified files only, it will work.
Cheers!
Aish
I deleted the muse_manifest.xml file and selected the Upload to FTP Host option selecting the option "All Files".  Afterward there was no change.
This is what happens:
I edit pages and select the Upload to FTP Host option.  I have "Only Modified Pages" selected.  I have made changes to three or four pages.  Muse uploads 37 pages.  I made no changes to a master page.  The update said it was successful.  I click OK. I go to my site and pages are loaded properly.
The very next thing I do is try another update and it loads 37 pages, although I have made absolutely zero changes. Not to a master, not to any page. The last thing I clicked in Muse was OK when it said the update was successful.  I do it again after changing nothing and 37 pages load.  It is not loading every page.  Just 37 (sometimes less, sometimes more).
I do not have any alerts showing on my assets panel that Muse might be confused by.
My Muse file is 55.4 MB (sizable, but nowhere near what others are dealing with.)
Can you help me?
Bruce

Answer 1

Okay, I emailed the link to my dropbox awhile back but continued to work on the problem on my own as I did not hear back.  Maybe you never saw the email, who knows? 
Anyhow, I discovered that it was custom buttons that I had created in Photoshop, with layers.  They worked just fine in Muse in all four states, they worked just fine when published. They were added to my library but on every page that they were placed, that page loaded every time. I checked and rechecked the links.  I added them to the library for each page they were on. No dice. They still required that page be loaded every time
It was definitely not worth the hassle so I deleted every one from my site and the site loads only modified pages perfectly now.
Maybe some day I will dig deeper into why they did not work but not today.
I hope that this helps someone.