It's amazing how many people I have worked with over the years that struggle greatly with file organization. Files were found all over their hard drives, even in Windows System folders, in the "root directory", or the Program Files folder. When scattered all over the hard drive, these files essentially become "lost". Scattered files and folders become very hard to back up when they can not be easily located.
How will you organize your digital collections? The most important piece of advice? Keep your collections under one primary folder. Typically "operating systems" like Windows or Macintosh will have a "My Documents" folder. You can use this data folder as a good starting point in centralizing your family history documents. Under this primary "My Documents" folder, you could create a "My Family History" folder.
By keeping all your file centralized under one principal folder, this also allows you to easily backup your entire family history document collection. AVOID putting your centralized folder in the "root directory" on the system disk. In other words, you should not see something like this: c:/My Family History. Trust me on this as the reasoning behind this is to complicated to fully explain here. It does involve however the ability to restore your Windows operating system and not overwrite your data files that are in the root directory.
You do not need to adopt any specific organizational strategy. We tend to organize in a way that we as individuals "think" and organize in our mind. You can always try out a few ideas and ask family members or others what they think. Ultimately, in the future it is your posterity that will need to know how to access and find your documents. Creating an organizational system BEFORE you start collecting very many documents will help to alleviate trying to later find out where you previously stuffed them in your computer. This can become a painful task of trying to find your files, revise labelling, creating duplicates, or accidentally "losing" files.