1) Article says there's little studies of Honeybee vs Native Bees so there's no definitive answer to whether or not Honeybees out compete native bees. We know a lot about honeybees compared to what little we know about native bees.
2) When colonists brought European honeybees to the Americas, they also started to terraform the Americas to resemble the European landscape. Current landscape in the Americas now favors European honeybees vs native bees.
3) A hive of 10K plus of honeybees has a much better chance of overcoming pesticides compared to solitary bees or bees in smaller communities. Simply by the numbers, honeybee hives have built in advantages compared to native bees.
4) Honeybees are generalist and opportunistic whereas many native bees are very picky eaters and heavily dependent on a few plants. This means that honeybees are much more adaptable to various different landscapes whereas native bees can only survive in areas where their native forage is still available.
5) European Honeybees are considered an invasive species yet they are the ones that FDA protects as they are vital to our current food pyramid based on large scale, mono-crop industrialized, European based SAD (Standard American Diet).