the method of preparation is highly dependent on which endpoints you want to observe in the tissues.
If you plan to do a comet assay, you will have to prepare a single cell suspension e.g. by trypsinization.
For assessing micronuclei in tissues, a classical histological slide preparation using a microtome and subsequent staining would be a good choice which would also allow the assessment of histopathological effects.
For cytotoxicity, cells from the organs of interest would have to be taken into culture before treatment, which can be quite tricky as you need a suitable protocol for the specific cell type (culture conditions, media, supplements, ...) which allows cultivation for at least several days.
In order to perform those toxicity assays and find the gross morphological changes int he zebrafish organs. You can go for JB-4 embedding kit. You need to have block holders and molds for microtomy. you need to place them in horizontal or vertical position as you needed and standardize the microtomy procedure by how many slices you are getting heart or liver etc.