Do you mean that the Panel was entirely blank or just that spot colors were not showing up? If it is a matter of no Spot Colors make sure that they are defined as such first in the Swatches Panel (there should be a black square with a hole in it next to the Spot Color's name). Just for the purposes of eliminating any other variables also make sure that something in the file has a spot color applied to it.
If the Separation Preview is not even showing the CMYK icons then it may be a problem with the Panel itself. In that case try deleting your InDesign cache files (not the same as deleting preferences). Deleting caches can restore missing elements from the interface.
To delete cache files:
For Macintosh Users: The User Library folder in which InDesign’s cache files are stored is hidden by default on most Macintoshes. To access it make sure that InDesign is closed and click on the desktop to launch a Finder Window (Command-N). With this window in column view follow the path User>Home folder (it’s the folder with an icon that looks like a house—it may have the user’s name rather than “Home”) and click on the Home folder. With the Option Key pressed choose Library from the Finder Go Menu. “Library” will now appear within the Home folder. Within the Library folder find the “Caches” folder. Within the Caches folder find and delete the entire folder “Adobe InDesign”. I find that deleting the InDesign cache folder completely leads to a lasting change.
For Windows Users: On Windows 7 and above the caches files are hidden. To find them go to the Control Panel and open Folder Options and then click the View tab. Then select “Show hidden files and folders” or “Show hidden files, folders or drive options” in Advanced Settings. Then delete (or rename) the folder at the end of this path: C:\Users\[User Name]\AppData\Local\Adobe\InDesign\Version [#]\<Language>\Cache.
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