The phrase "to eliminate any lumps" means to get rid of or remove any small, uneven, or clumpy parts to make something smooth and even. Full definition
The only thing I would change in the assembly is to sift together the flour, baking powder, and soda to eliminate lumps in the dry ingredients — I noticed some of either the baking powder or soda did not incorporate well into the batter. (smittenkitchen.com)
Sifting eliminates lumps and aerates the mixture, making the dough tender and lighter. (mattbites.com)
Tier VI also eliminates lump sum payments of unused sick and vacation time from the calculation of final average salary. (rocklandtimes.com)