Apple produced ten SEs with transparent cases as prototypes for promotional shots and employees.

[6] (The Macintosh II, which was announced at the same time but shipped a month later, included System 4.1 and Finder 5.5.)

Single-floppy SE models also featured a drive-access light in the spot where the second floppy drive would be.

Macintosh SE machines which have sat for a long time have experienced battery corrosion and leakage, resulting in a damaged case and logic board.

Since installing a card required opening the computer's case and exposing the user to high voltages from the internal CRT, Apple recommended that only authorized Apple dealers install the cards; the case was sealed with then-uncommon Torx screws.

By jumping to address 0x41D89A (or reading from the ROM chips), it is possible to display four images of the engineering team.