You know i've been looking at your recipe and I'm wondering if your dough is just too heavy for it to rise properly.
Have you tried cutting back on the amount of oil and honey? Maybe try 1/4 cup of each instead of a 1/3cup. It won't make much difference in flavor but it might lighten up the dough enough for it to rise.
Also are you using yeast formulated for Whole Wheat Flour? If not I'd suggest you try it to see if it helps.