Fonts in OSX
If you are going to manually organise your fonts first decide on a strategy for your font library. You should centralise your fonts into one location. Make a new folder in /Users/Shared and call it My Fonts. Within this folder you can implement your chosen strategy. Here are some suggestions:

Alphabetically by name
This is often the easiest way to find a particular font. If using this method you could add subfolders within the My Fonts folder, for example A-D, E-H, etc.

By classification
This strategy can be used by those experienced in typography. You could set up subfolders such as Serif, Sans Serif, Script, Display, etc.

By Job
Often used in production environments you could create a set of subfolders for each job or magazine title that you are responsible for.

With font management software fonts can be activated and de-activated from this location as they are needed.
Fonts that are stored in the areas described on the Font locations page are typically managed by the operating system and not your font management software, so it is time to tidy up those fonts.

>> Removing fonts