The warning in creating TxDb:

gtffile <- file.path("PATH/Mus_musculus.GRCm38.86.gtf")

txdb <- makeTxDbFromGFF(gtffile, format="gtf")

Import genomic features from the file as a GRanges object ... OK
Prepare the 'metadata' data frame ... OK
Make the TxDb object ... OK
Warning messages:
1: Named parameters not used in query: internal_chrom_id, chrom, length, is_circular
2: Named parameters not used in query: internal_id, name, type, chrom, strand, start, end
3: Named parameters not used in query: internal_id, name, chrom, strand, start, end
4: Named parameters not used in query: internal_id, name, chrom, strand, start, end
5: Named parameters not used in query: internal_tx_id, exon_rank, internal_exon_id, internal_cds_id
6: Named parameters not used in query: gene_id, internal_tx_id 

It doesn't change if I add the other arguments as "dbxrefTag= "GeneName" " or "circ_seqs=character()"

of course I insert the correct path, so PATH is the full path where the gtf file exists:

Those are just warnings that you can safely ignore. They will go away when we release the new version of GenomicFeatures in April.