I've seen clear dots very few times in about 38 years, but there are two possible causes.
1. The tank was contaminated, maybe hadn't been washed properly and fixer has crystallised getting into the developer.
2. Far more likely - small particles of iron in the water used, these react with the fixer causing it to bleach the image, you can filter the water & solutions to prevent this.
Welcome to APUG by the way
Ian