I just used the latest version of forge to create a new workspace and such, and I don't know if this is concerning, but when I ran the setupDecompWorkspace command, when it was patching the minecraft files it "rejected" the patch for the WorldGenDungeons.java file. Here's what it said:

Patching failed: net/minecraft/world/gen/feature/WorldGenDungeons.java Cannot find hunk target
  2: Cannot find hunk target @ 0
  1/3 failed
  Rejects written to C:\Users\FamilyVII\Desktop\mcp172\NuiCraft\build\tmp\expandedArchives\forgepatches.zi
p_7m9h85aricudh12fe2i8mr2eam\net\minecraft\world\gen\feature\WorldGenDungeons.java.patch.rej

just thought the forge people would want to know about this!

 

get me the file thatit says its writing the rejects to.

Here's whats in the file:

++++ REJECTED PATCH 2
                                 if (k2 == 1)
                                 {
                                     p_76484_1_.func_147465_d(i2, p_76484_4_, j2, Blocks.field_150486_ae, 0, 2);
-                                    WeightedRandomChestContent[] aweightedrandomchestcontent = WeightedRandomChestContent.func_92080_a(field_111189_a, new WeightedRandomChestContent[] {Items.field_151134_bR.func_92114_b(p_76484_2_)});
                                     TileEntityChest tileentitychest = (TileEntityChest)p_76484_1_.func_147438_o(i2, p_76484_4_, j2);

                                     if (tileentitychest != null)
                                     {
-                                        WeightedRandomChestContent.func_76293_a(p_76484_2_, aweightedrandomchestcontent, tileentitychest, ;
+                                        WeightedRandomChestContent.func_76293_a(p_76484_2_, ChestGenHooks.getItems(DUNGEON_CHEST, p_76484_2_), tileentitychest, ChestGenHooks.getCount(DUNGEON_CHEST, p_76484_2_));
                                     }

                                     break label101;
++++ END PATCH

Thats the patch file, but it should also contian another section with that it found/couldn't patch....

Im curious why that would cause that to miss.

I don't know. That's the .rej file it said it wrote to.