Hi,
I cannot reproduce your issue. While looking at https://rdotnet.codeplex.com/discussions/446998 I basically tested something similar to your situation by loading some packages which I have installed in a 'personal' folder. Not quite the same setup as you, but close.
I have logged an issue to try to look at it further. https://rdotnet.codeplex.com/workitem/42
I cannot reproduce your issue. While looking at https://rdotnet.codeplex.com/discussions/446998 I basically tested something similar to your situation by loading some packages which I have installed in a 'personal' folder. Not quite the same setup as you, but close.
I have logged an issue to try to look at it further. https://rdotnet.codeplex.com/workitem/42