Followed Linking Root Domains and No Followed Linking Domains
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If you have more NoFollowed Linking Root Domains than Followed Linking Root Domains is that a problem?
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Purely on the ratio - no. It's no problem at all. I very much doubt your followed vs non-followed ratio is a ranking or negative ranking factor.
However, all of those no-followed links will not be passing link equity and - I'm very much generalising here - a few spammy links are generally nofollowed, such as blog comments. I'd just quickly review the links that are there and make sure they aren't spammy, but other than that having a larger amount of nofollow links won't be a problem.
Hope that helps.