I was running into the same problem with the tech tree looking like lordcirth's screenshots. I was on WMCC 0.0.4. with KSP 0.2.1.0. I downgraded WMCC back to 0.0.3 and everything looks correct with Rapid Planned Disassembly as the second node. Thank you for your work on this mod.
Edit: Found these errors:
[ERR 10:24:46.043] Unable to add part parachute_0v_radial_drogue with TechNodeID wmcc_advanced_survivability to TechNodeUnlockID dictionary. An item with the same key has already been added with the TechNodeID wmcc_basic_survivability
[ERR 10:24:46.044] Unable to add part nosecone_0v with TechNodeID wmcc_advanced_aerodynamics to TechNodeUnlockID dictionary. An item with the same key has already been added with the TechNodeID wmcc_basic_aerodynamics
[ERR 10:24:46.052] Unable to add part stabilizer_0v_reactionwheel with TechNodeID wmcc_advanced_aerodynamics to TechNodeUnlockID dictionary. An item with the same key has already been added with the TechNodeID wmcc_basic_aerodynamics
[ERR 10:24:46.053] Unable to add part antenna_1v_dish_hg55 with TechNodeID wmcc_deep_space_communications to TechNodeUnlockID dictionary. An item with the same key has already been added with the TechNodeID wmcc_even_longer_range_communications
[ERR 10:24:46.053] Unable to add part stabilizer_2v_reactionwheel with TechNodeID wmcc_advanced_electronics_plus to TechNodeUnlockID dictionary. An item with the same key has already been added with the TechNodeID wmcc_advanced_electronics