Why the numbers conflict
Some guides count every Beacon object, some count only those requiring cleansing, and others appear to count visible markers. Those are different statistics, not necessarily different maps.
A safer checklist
Organize by region and record discovered, cleansed and initially active as separate fields. This gives you an auditable route even if a later patch changes the interface or total.
Publication status
The 49/46/3 breakdown is corroborated by two launch guides but not yet treated here as permanent canonical data. Confirm it against the current achievement tracker before a completion run.