I'm also experiencing this issue. Currently running 14.04.2 with Compiz enabled 
on an Gigabyte motherboard intel i7cpu.
The issue happens about once in every session at random times. Mostly when I 
have 2+ windows open.

The way I fix it is I go the windows list on the bottom panel, right
click on the window that is giving me issue, Select minimize then right
click the same window and select unminimize and the buttons re-appear

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https://bugs.launchpad.net/bugs/1356892

Title:
  the buttons "minimize, maximize, close" in caja desappear

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