Hi @asbarros,
If. you'd like to reomove the primers then all you need to do is, (do not use the adapter flags):
qiime cutadapt trim-paired \
--i-demultiplexed-sequences 01_intermediate_files/Reads_full.qza \
--p-cores 12 \
--p-front-f GTGYCAGCMGCCGCGGTAA \
--p-front-r GGACTACNVGGGTWTCTAAT \
--verbose \
--p-discard-untrimmed \
--o-trimmed-sequences 01_intermediate_files/Reads_full_clean.qza\01_intermediate_files/Reads_full_cutadapt_log.txt
If your reads are in mixed orientation then you'd run as outlined here with the primers and reverse complement for the --p-front-* flags. Most do not need to run cutadapt in this say, so the first example should work.