The problem with his claims is that they don't include entanglement, which was the major prediction of new quantum theory, as opposed to the Bohr model. At least he correctly is attacking the source of the quantum weirdness-- entanglement was experimentally demonstrated from the He atom ground state originally.
The main point of this attack on QM is to replace QM with an entanglement free scheme, which will then not have to have all the "many worlds" quantum superpositions, but just some physical deBroglie waves waving along with particles in real space.
This is hopeless, because entanglement is measured directly by now. The best evidence is in the Bell test experiments of Aspect. It is there that you see that classical local models are definitely wrong, and while you might cook up some explanation for the energy of Helium, you can't cook up a local explanation for violations of Bell's inequality.
For the particular claims on this website, perpendicular orbits doesn't work for Helium, because the electrons repel--- they don't stay perpendicular. The classical orbits are a chaotic nightmare, you can't use them to semiclassically quantize the ground state of Helium, it just isn't semiclassical. If you try, you will have to use orbits which are far apart from each other an abnormal fraction of the time, due to the entanglement. This is ad-hoc and inconsistent with classical equations, unlike QM (this is a repeat of what twistor59 said).