I tried to reproduce your issue (on a Windows 64 bit system, but with a KNIME 32-bit version), but it worked for me. It seems that your Windows 32-bit Operating System has a file missing that is required by the boost DLL that the RDKit is using. To find out what file is missing please run a dependency walker on the file knime_2.9.4\plugins\org.rdkit.knime.bin.win32.x86_2.4.0.201405211049\os\win32\x86\boost_system-vc100-mt-1_51.dll ...
There is another thread that at its very end discusses a similiar issue which was solved by copying over a missing DLL to one of the KNIME folders: http://tech.knime.org/forum/rdkit/solved-rdkit-broken-after-update - Please have a look and let me know if it helped.
I'm also experiencing issues. After reading info on the RDKit forums and trying the dll fix, I still get these messages:
ERROR RDKitTypesPluginActivator Could not load native RDKit library: C:\Program Files\Knime\Knime 2.8.2_x86_64\plugins\org.rdkit.knime.bin.win32.x86_64_2.4.0.201402061135\os\win32\x86_64\boost_system-vc100-mt-1_51.dll: %1 is not a valid Win32 application
ERROR RDKitTypesPluginActivator Loading of library boost_system-vc100-mt-1_51.dll failed: C:\Program Files\Knime\Knime 2.8.2_x86_64\plugins\org.rdkit.knime.bin.win32.x86_64_2.4.0.201402061135\os\win32\x86_64\boost_system-vc100-mt-1_51.dll: %1 is not a valid Win32 application
ERROR RDKitTypesPluginActivator The library boost_system-vc100-mt-1_51.dll has dependency issues. Please run a dependency walker on this file to find out what is missing.
ERROR RDKitTypesPluginActivator Loading of library GraphMolWrap.dll failed (possibly a subsequent error): C:\Program Files\Knime\Knime 2.8.2_x86_64\configuration\org.eclipse.osgi\bundles\libtemp\544_0\GraphMolWrap.dll: Can't find dependent libraries
ERROR RDKitTypesPluginActivator The library GraphMolWrap.dll has dependency issues. Please run a dependency walker on this file to find out what is missing.
ERROR RDKitTypesPluginActivator Suggestion for fix: Please correct your system libraries based on the outcome of the dependency walker.
Can anyone please advise? I'm running KNIME 2.8.2 on Windows 7 with 64bit.