If you want to noindex any of your pages, there is no way that Google or any other search engines will think something is fishy. Its up to the webmaster to decide what and what not to get indexed from his website. If you implement page level noindex, the link juice will still flow to the page but if you also have nofollow along with noindex, the link juice will flow to the page but will be contained on the page itself and will not be passed on the links that flow out of that page.
I conclude by saying, there is nothing wrong in making the pages non-indexable.
Here is an interesting discussion related to this on Moz:
http://moz.com/community/q/noindex-follow-is-a-waste-of-link-juice
Hope it helps.
Best,
Devanur Rafi