*shrug* I think the logic is that anyone alive in Tamriel "today" will have at least a vague knowledge of magic - such as exemplified by the two very low level starter spells. Tamriel is a land flush with magic energy; probably every person absorbs those "baby" spells at birth, or at least before going out to adventure. If they don't fit a preconceived idea for a toon, just don't use them. If you never use them, they cease to be an issue....
While everyone does have magic in them (that is why every character has starting MP), it doesn't mean everyone knows (or wants to know) how to use it.
That would especially go for races like Nord, Orc and, most of all, Redguard (they find people who use magic to be weak and cowards with only exception being Sword singers).
Still, while I do agree that this is not that big of a problem, I simply don't see a valid reason why there couldn't exist a command which would allow us to delete spells we don't want.
Also, only because I don't use them, it doesn't mean it's not there and they still continue to be an issue.