On census records where she is in parent's household, the mother would then be using her married name Flowers.
As for variations of spelling of first, middle, and sometimes, last name, remember that not everyone could read or write, and so the record taker might spell it according to how it sounded. Also, often children were called by their middle name and when they got older switched to the given name. Or vice versa.
The father she is connected to needs research. Most records are fairly clear on the name of her father. Wiley though could be a nickname for William. **Upon a quick glance at the records, I would say the father she is connected to is the incorrect one.