base scores in pacbio fastq files have no to very little meaning due to the specifics of the pacbio technique (at least that's how I remember from older datasets, perhaps it changed for more recent datasets), so don't worry too much about this I would say.

If you use the conversion tools of pacbio smrt package, I think you can even say what you want to scores to be

Just use the data as it is without taking the scores into account.

some more info which I recently found online:

Please note that raw data quality scores are the same for all bases of the Sequel raw data (PHRED 0 — ASCII !). PacBio came to the conclusion that computing the quality scores for the raw data was a waste of time. Apparently the quality scores for the raw data cannot be reliably computed (and consequently these were also ignored for RSII data pipelines). However, usable PacBio quality scores can be generated from consensus data if the project allows (either by CCS or other secondary analysis algorithms: e.g. by alignments all-vs-all). In short the determination of the quality of individual reads is up the downstream analysis pipeline (e.g. the assembler).