> How do you make an organisation become less partisan when every issue it touches is of core interest to the party politics of the day?
Have it focus on the issues and not the parties.
That's what they have to do anyway if they want to be effective. At any given time more often than not -- including right now -- the same party doesn't control both houses of Congress and the whitehouse, so anything you want to do needs bipartisan support anyway.
What's really happening here is that organizations that are supposed to be about issues are getting coopted by partisans -- which makes them less effective at their stated purpose, but more useful to the partisans who can then remove support from the opposing party members who actually support that issue.
As for how "you" can do it, don't support "issue organizations" that are really partisan organizations, and instead support actual issue organizations. You can tell the difference because you can see real issue organizations regularly working with both parties and supporting candidates who support their issues regardless of which party they're in.