The word "virus" causes absolute panic in orchid growers. In fact, they are pretty rare these days. I think that your plant is suffering from some insect damage, and also possibly fungus. Were this my plant I would presume that whatever is bothering it is also into everything else, and so treat my whole collection. I would first go after the insects, because I think that they are the bigger contributors.
Since you're planning to repot, there's no time like now. LEAVE THE SPIKES, because Phals can be repotted in bloom and because treatment is going to be effective with or without them. Unpot the plant as always, and clean all old material from the roots. Then spray the plant with a systemic insecticide, including the roots, before repotting. Spray all of the other plants as well. And please repot it in bark rather than sphagnum!
After a week, spray the plants again, this time using a copper-based fungicide/bacteriacide. After another week, re-apply the insecticide. My guess is that the leaf damage is more likely insect than fungal/bacterial, but there is some spotting on a flower that's fungal.
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