A racial trait of +1 to production (good question as to whether this gives a +1 to Raw Production as well as +15% to manufacturing...I am thinking it does!) gives a +15% bonus to manufacturing
Unless the XML file containing the racial traits doesn't include all the modifiers, then Productive only gives the manufacturing bonus.
Furthermore, checking against a homeworld with 10 population and 50% approval, there is no evidence for a +1 production from Productive. The expected raw production of such a world is 20.02 if there isn't a production bonus from Productive or 21.02 if there is, and the raw manufacturing/research/wealth production at 100% slider position is 20.0 (give or take; sometimes you get 19.9, sometimes you get 20, most likely due to a slider position which isn't exactly 100% but which rounds to 100%). The sum of the raw outputs with the slider in default position is 20.1 (6.7*3), which is within the margin of error for rounding to the tenths place in the manufacturing/research/wealth tool tips; besides which, at 21 base production each of those raw output values should be 7 rather than 6.7.
Therefore, I would rule out the possibility that Productive gives bonuses to raw production. You may, however, have the tech that grants +1 raw production (Enhanced Production in the Colonization tree, same specialization as Soil Enhancement and Enhanced Growth, if I recall correctly; if there are other such techs, I cannot think of them off the top of my head). There are also a few technologies that grant percentage bonuses to production, at least in the Terran tree; they're mostly in the governments section of the Influence tree, if I recall correctly.
As for how the production bonus from a starbase stacks with the production bonus from approval, I believe it is additive. I checked this on a homeworld with 6.7 population, 100% approval (+25% production), 1 economic starbase (+10% production), and Enhanced Production (+1 production). The homeworld's raw manufacturing at 100% manufacturing was 25.0; if we assume that rounding in game always rounds up on the slider values and rounds down on the raw manufacturing values, then the maximum possible production which would give us "25.0" raw manufacturing at "100%" manufacturing is 25.1 / 0.99 = 25.35. The expected value of the planet's production with the starbase bonus stacking multiplicatively with the approval bonus is (11 + 2*6.7^0.7)*1.25*1.1 = 25.54, while the expected value of the planet's production with the starbase bonus stacking additively with the approval bonus is (11 + 2*6.7^0.7)*(1 + 0.25 + 0.1) = 25.07. Setting the sliders to 33%/33%/33% gave raw production values of 8.4/8.4/8.3, which sums to 25.1, while setting the sliders to 50%/50%/0% gave raw output values of 12.5/12.5/0.0; if the production had been 25.5 these should have been roughly 8.5/8.5/8.5 and 12.8/12.8/0 respectively.
I think there's enough there to conclude that the starbase production bonus stacks additively with the approval production bonus, and since this is the case I would further presume that the starbase production bonuses stack additively with one another. This is what I'd expect regardless, as this is how all other multipliers in the game behave.
As far as getting the numbers in Bamdorf's example to work:
Bamdorf probably has +1 production globally from Enhanced Production, accounting for the +1 that Bamdorf misattributed to the Productive trait. The planet has +5 production from its capital and +1 production from the Durantium Refinery. Together, this gives +7 flat production. We see evidence of two economic starbases for +20% production, and of 100% approval for +25% production, giving a known multiplier of 1.45 (which accounts for the -1.5 production from removing the Durantium Refinery, with a little rounding). I suspect that Bamdorf has Interstellar Governance (or its equivalent, if not using the Terran tech tree), which gives a further +10% production, though this wasn't mentioned in the details of the example.
(5 + 1 + 1 + 2 * 4^0.7) * (1 + 0.25 + 2 * 0.1 + 0.1) = 12.28 * 1.55 = 19.03
Bamdorf, does this solve your bookkeeping issues? Have you researched a tech in the Influence tree that gives a +10% production bonus, or do you have a third economic starbase that you forgot about? Also be aware that there's a bit of rounding that goes on in the game; if you round the base production to 12.3, then you'll get a base production of 19.07, which would round to 19.1 when displayed in game.