Your first "for" loop overwrites "x" on each iteration, which isn't going to do you much good.
Your line,
Difference(i,j) = @(penalty) opportunity(i,j) - penalty;
attempts to set Difference(i,j) to a function handle, not to a numeric result. If my memory is correct, then you cannot assign a function handle as an array element in any version of MATLAB that supported anonymous functions. (It is legal to store function handles as cell array elments, though -- but that would require assigning to Difference{i,j} )
You do not show any initialization for Difference, and changing Difference after your run the fminsearch() is not going to change the result of the optimization.
fminsearch() must be passed a single function handle, not an array of handles. It is an error to attempt to assign a function handle array element in modern versions of MATLAB.
If Difference(i,j) did somehow get assigned a function handle, then in the next line where you attempt to check if Difference(i,j)>0, that would be a call to the function handle at Difference(1,1) with argument (i,j), rather than a retrieval of the function handles. And function handles cannot be compared to numeric values if you were able to retrieve the handle instead of calling the function.
Lastly... I do not seem to understand what you are asking to do? Perhaps you could restate it? fminsearch() cannot process multiple searches at the same time, if that is what you are implicitly asking.
