So, the scriptures I have on my laptop (installed via CD-ROM) seemed to need updating, because I could not find a way to highlight certain texts. It is possible that I was looking at the wrong one, since the CD-ROM installed two versions.
In any case, I searched the internet for something I could put on my computer. For a while, all I found were phone apps (and ipad). Even LDS.org had only pdf or audio files.
Finally, I found this site and I really like the program. It is, basically, an update of the scriptures I have already, though it installs as a separate program. One can highlight in 15 different colors, creating a category for each color. Also, there is plenty of space to write notes (one has to click on the note icon). This is so good that I would take my laptop to church if the battery could hold out that long. Oh, and there is no charge (it's a BYU site).