Background: The ultra-high dilutions (UHDs) can used for decreasing stress conditions causing by climate variations. Present research, it was investigated the effects of the ultra-high dilutions (UHDs) on some ornamental plants, germination, and hormonal variations. Methods: In order to study the effect of UHDs (Calendula officinalis Calen. and Arnica montana Arn.) on the physiological, primary metabolite and hormonal variations of the Oryza sativa L. (rice), 104 experiments were designed and statistically analyzed using the Design Expert 7.0.1 software over the general factorial design methodology. Two qualitative factors including the UHDs/placebo usage and the type of plant usage and two quantitative factors including temperature and irrigation were studied. The validated analysis was subjected to more extended studies on the variations in physiological growth, carbohydrate, protein content and levels of plants hormones including gibberellic acids, indole acetic acid, abscisic acid and salicylic acid. Results: The statistical analysis resulted in a prediction model which was more than 75% correlates with experimental results. The results showed that the UHDs increased the carbohydrate and protein content of seedlings. Also compared to placebo, the levels of hormones GA3 and IAA in all samples increase and the amount of GA4 decreases. The amount of ABA and SA hormones in S. officinalis increased under UHDs treatment while they decreased in the other two samples. Conclusion: The use of UHDs leads to an increase in the production of carbohydrate and protein content. Moreover, it causes significant variations in the growth inducing hormone and increase the tolerance of seeds under higher/lower temperature and draught/drowning. The results of this study open up a window to reduce the germination survival and increase their resistance to sudden climate change.