I have a few thoughts.
my first thought is that you could lower your strings to reduce the amount of weight (think of it as weight, not pressure. pressing's not so good) needed to achieve the harmonic. I would consider this option as one of your last resorts, as it involves changing playing style to achieve a technique.
my next thought is as to whether you sit or stand. if you're standing it will be more difficult to apply the weight needed to depress the string to get that harmonic (this coming from a bassist who prefers to stand), so you may try that. once again, it's not a great solution, but could be something to try.
my final thought is where is your elbow? you could try rotating your elbow further up to get your wrist more perpendicular to the fingerboard, changing your hand's (and therefore you thumb's) angle of attack. think of it as thumb position, and clearing the ribs of the bass, but further back on the fingerboard.
I hope some of this rambling helps. let us know how it goes!
eerbrev