Items/Materials with no usages:

• Alluvial bastnastite deposit
• flotated bastnastite
• Xenotime concentrate Dust
• Monazitic Thulium-Lutetium Concentrate
• Xenotimic Thulium-Lutetium Concentrate
• Rare Earth Cation Exchange Resin Beads

Items/Materials with no recipes:

• Monazitic Thulium Concentrate
• Xenotimic Thulium Concentrate
• Potassium Chlorate
• Loaded Lutetium Exchange Resin Beads (makes Lutetium unreachable)
• Roasted Bastnasite Dust

Other problems

• Erroneously formatted Chemical formulas for Neodymium and Samarium hydroxide: XH3O3 -> X(OH)3

This list is probably not exhaustive but these are the ones I found

are you sure you deleted your groovy cache since a lot of these issues are not actually real.