Your Mod increases the Recipe cost, by default by x3.5 and with 4 Quality Modules by x15.
Which also affects the Recycler Recipes.
Now every non-stackable item(Asteroid chunks or Factorissmo Factory Buildings for example) aswell as all items with a stack size of <3.5 with 1 Quality Module or <15 with 4 Quality Modules cannot be recycled with Quality Modules (Upcycling).

Additionally it seems the Output of recycled materials is calculated for only 1 input , not for all 15 input items. So 15 items goes >in< the recycler but only the amount of one recycled item comes >out<.
I hope you understand what i mean.

Can you add a option to disable the Recipe cost increase for Recycle Recipes.

Hmmm... weird, afaik stack sizes don't matter in crafting machines. There is a few recipes in vanilla where much greater amounts of ingredients are needed than fit into one stack. Might be specific to furnaces. (Recyclers are coded as furnaces under the hood.)

That upcycling only returns the components of one input is intended, that's just consistent with the rest of the mod. That said in 1.2 I have added a 25% discount for recycling, to account that technically only 0.75 items are consumed by the recycling process.