Here's my run log:
[12:59:28] [main/INFO] [LaunchWrapper]: Loading tweak class name cpw.mods.fml.common.launcher.FMLTweaker
[12:59:28] [main/INFO] [LaunchWrapper]: Using primary tweak class name cpw.mods.fml.common.launcher.FMLTweaker
[12:59:28] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.common.launcher.FMLTweaker
[12:59:29] [main/INFO]: Logging in with username & password
[12:59:29] [main/INFO] [FML]: Forge Mod Loader version 7.10.18.1180 for Minecraft 1.7.10 loading
[12:59:29] [main/INFO] [FML]: Java is Java HotSpot(TM) Client VM, version 1.7.0_67, running on Windows 7:x86:6.1, installed at C:\Program Files (x86)\Java\jre7
[12:59:29] [main/INFO] [FML]: Managed to load a deobfuscated Minecraft name- we are in a deobfuscated environment. Skipping runtime deobfuscation
[12:59:29] [main/INFO] [LaunchWrapper]: Loading tweak class name cpw.mods.fml.common.launcher.FMLInjectionAndSortingTweaker
[12:59:29] [main/INFO] [LaunchWrapper]: Loading tweak class name cpw.mods.fml.common.launcher.FMLDeobfTweaker
[12:59:29] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.common.launcher.FMLInjectionAndSortingTweaker
[12:59:29] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.common.launcher.FMLInjectionAndSortingTweaker
[12:59:29] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.relauncher.CoreModManager$FMLPluginWrapper
[12:59:29] [main/ERROR] [FML]: The binary patch set is missing. Either you are in a development environment, or things are not going to work!
[12:59:31] [main/ERROR] [FML]: The minecraft jar file:/C:/Users/MarnBeast/.gradle/caches/minecraft/net/minecraftforge/forge/1.7.10-10.13.0.1180/forgeSrc-1.7.10-10.13.0.1180.jar!/net/minecraft/client/ClientBrandRetriever.class appears to be corrupt! There has been CRITICAL TAMPERING WITH MINECRAFT, it is highly unlikely minecraft will work! STOP NOW, get a clean copy and try again!
[12:59:31] [main/ERROR] [FML]: FML has been ordered to ignore the invalid or missing minecraft certificate. This is very likely to cause a problem!
[12:59:31] [main/ERROR] [FML]: Technical information: ClientBrandRetriever was at jar:file:/C:/Users/MarnBeast/.gradle/caches/minecraft/net/minecraftforge/forge/1.7.10-10.13.0.1180/forgeSrc-1.7.10-10.13.0.1180.jar!/net/minecraft/client/ClientBrandRetriever.class, there were 0 certificates for it
[12:59:31] [main/ERROR] [FML]: FML appears to be missing any signature data. This is not a good thing
[12:59:31] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.relauncher.CoreModManager$FMLPluginWrapper
[12:59:31] [main/INFO] [LaunchWrapper]: Calling tweak class cpw.mods.fml.common.launcher.FMLDeobfTweaker
[12:59:31] [main/INFO] [LaunchWrapper]: Launching wrapped minecraft {net.minecraft.client.main.Main}
[12:59:31] [main/INFO]: Setting user: MarnBeast
[12:59:32] [Client thread/INFO]: LWJGL Version: 2.9.1
[12:59:33] [Client thread/INFO] [MinecraftForge]: Attempting early MinecraftForge initialization
[12:59:33] [Client thread/INFO] [FML]: MinecraftForge v10.13.0.1180 Initialized
[12:59:33] [Client thread/INFO] [FML]: Replaced 182 ore recipies
[12:59:33] [Client thread/INFO] [MinecraftForge]: Completed early MinecraftForge initialization
[12:59:33] [Client thread/INFO] [FML]: Searching C:\Users\MarnBeast\Developer\Minecraft Mods\Mod Code\run\mods for mods
[12:59:34] [Client thread/ERROR] [FML]: FML has detected a mod that is using a package name based on 'net.minecraft.src' : net.minecraft.src.FMLRenderAccessLibrary. This is generally a severe programming error. There should be no mod code in the minecraft namespace. MOVE YOUR MOD! If you're in eclipse, select your source code and 'refactor' it into a new package. Go on. DO IT NOW!
[12:59:36] [Client thread/INFO] [FML]: Forge Mod Loader has identified 3 mods to load
[12:59:36] [Client thread/INFO]: Reloading ResourceManager: Default, FMLFileResourcePack:Forge Mod Loader, FMLFileResourcePack:Minecraft Forge
[12:59:36] [Client thread/INFO] [FML]: Processing ObjectHolder annotations
[12:59:36] [Client thread/INFO] [FML]: Found 341 ObjectHolder annotations
[12:59:36] [Client thread/INFO] [FML]: Configured a dormant chunk cache size of 0
[12:59:36] [Client thread/INFO] [FML]: Applying holder lookups
[12:59:36] [Client thread/INFO] [FML]: Holder lookups applied
Starting up SoundSystem...
Initializing LWJGL OpenAL
(The LWJGL binding of OpenAL. For more information, see http://www.lwjgl.org)
OpenAL initialized.
[12:59:37] [sound Library Loader/INFO]: Sound engine started
[12:59:37] [Client thread/INFO]: Created: 512x256 textures/blocks-atlas
[12:59:37] [Client thread/INFO]: Created: 256x256 textures/items-atlas
[12:59:37] [Client thread/INFO] [FML]: Forge Mod Loader has successfully loaded 3 mods
[12:59:37] [Client thread/INFO]: Reloading ResourceManager: Default, FMLFileResourcePack:Forge Mod Loader, FMLFileResourcePack:Minecraft Forge
[12:59:37] [Client thread/INFO]: Created: 256x256 textures/items-atlas
[12:59:37] [Client thread/INFO]: Created: 512x256 textures/blocks-atlas
SoundSystem shutting down...
Author: Paul Lamb, www.paulscode.com
Starting up SoundSystem...
Initializing LWJGL OpenAL
(The LWJGL binding of OpenAL. For more information, see http://www.lwjgl.org)
OpenAL initialized.
[12:59:38] [sound Library Loader/INFO]: Sound engine started
One thing I noticed is that my packages are now instead broken into a folder hierarchy. For instance, what was a package net.evildead.mod before losing my environment and trying to clone is now just folders net/evildead/mod in my package explorer. No idea if that's relevant, but it's a change.