Ok, so this suggests that either nothing has precipitated out of solution, or if it has, it's too small to be caught by the filter paper. The cloudy appearance suggests to me that something is scattering the light, and is therefore probably in a solid rather than liquid phase. What grade filter paper did you use, and do you have any finer ones available?
Also note that, whilst the ingredients are nominally all water-soluble, the effect of combining them can do interesting things - for example, forming new compounds that are less soluble, or reducing the saturation point such that part of the content of something may cease to be soluble.
Used grade 1.I will redo couple of bottles again to ensure my staff did in correct way.
Filtered potable mains? What sort of filter? May be academic in this case, but can have a bearing in some circumstances, with certain weirder occasional issues with soft driks products.
I think it might be council water but I will check with our contract manufacturer.
That looks like a fairly notable difference to me. Are you able to measure titratable acidity? The results imply that the acid content has increased, which makes me wonder about e.g. lactic/acetic acid production by bacteria.
When are the microbiological results due?
Results are due late next week. Will keep you informed. Will ask lab to do titratable acidity in case micro results are high.
Is the sugar just standard sucrose? If so, I wouldn't expect this to have this type of impact. With glucose you can occasionally see formation solid crystals if the glucose content is high, particularly if the product is subjected to repeated changes in temperature. Given what you've said about the drink, I wouldn't have thought this is likely here though.
What is your filling setup? e.g. is this a multi-head filler?
I've seen issues where there is a subtle issue with one head in a multi-head unit, resulting in micro problems with a proportion of bottles spread throughout a batch. With some types of issue it can even be the case that not every bottle from the "bad" head is affected, making it even harder to spot the pattern and diagnose the actual issue.
Is there any post-fill processing, e.g. bath/tunnel pasteurisation?
I had same opinion as well but its contract manufactured and manufacturer said all heads were fine. In fact because No added sugar was done before this one and there is no issue with no added sugar which makes me think that if there was any issue with head/heads I would have issues with no added sugar bottles as well which is not the case.