Yes, the frequency of sound waves produced by an organ pipe changes with its diameter. The fundamental frequency of an organ pipe is,

\(f=\frac v{4\left(l+c\right)}\)  ; for closed pipe

And,

\(f=\frac v{2\left(l+2c\right)}\) ; for open pipe

Since, c=0.3d; end correction depends upon diameter 'd' of pipe, hence the frequency also depends upon the diameter of an organ pipe.