For some reason eggs that are placed in bowls can't be interacted with without first picking up the bowl. Two examples are 000C9761 and 000C9762 in Fellglow Keep. Unless I haven't been paying attention for all these years it must be something that is a relatively new problem.
It looks like there is a collision fix of some type done in v4.3.7 (currently in beta). I tried testing to see if that solved the issue, but so far it hasn't. There aren't any mods or loose files in my game folder that would touch the meshes for the various versions of eggs.