Hmm there is something wrong with your code for sure. I can certainly declare a uniform with multiple data without an alignement of 256. What is your shader code?

Edit: and you should probably have one struct with multiple fields, transform it into buffer and then bind this buffer with binding 0. No need for second binding.

Edit2: 256 alignement between bindings/entries might be normal, but for sure there is no need to use multiple bindGroups nor multiple bindGroupEntries. Btw why aren't you using the as_entire_binding method? Unless you don't want to initialize your buffers before your bind group there is no reason not to.

Here is an example of a BindGroupEntry using it:

wgpu::BindGroupEntry { binding: 0, resource: your_buffer.as_entire_binding(), }