[haste]

runes.runeMap doesn't do anything in 1.4. It's a feature which was removed, but not removed entirely.

You have to manually do it in your layout code. You have to add those two lines above and below the positioning code. Also known as the point where you execute :SetPoint() on the rune statusbars.

Basically:

for i=1,6 do 
 -- create runes
end

-- swap frost and unholy runes, so they get correctly aligned.
runes[3], runes[5] = runes[5], runes[3]
runes[4], runes[6] = runes[6], runes[4]

for i=1,6 do
 -- position runes
end

-- swap unholy and frost back so they get correctly updated.
runes[3], runes[5] = runes[5], runes[3]
runes[4], runes[6] = runes[6], runes[4]

runeMap is something I want to return, because the above process is cumbersome. I've yet to figure out how I can do it without creating extra complications for both me and the author.